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SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00473

Bact-Vir

SR-VP_4-6_scaffold_141_2630357_prodigal-single.1__X__X__00473

Identity

Kingdom:
phage

Quality

87.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 28-108
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3t5vA00 1.25.40.990 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.73 67.0 4.48e-01 100.0% 81.6%
2yevA03 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.72 57.0 4.35e-01 85.2% 61.4%
3myvA01 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.72 58.0 4.14e-01 87.7% 62.0%
2fu2A00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.71 48.0 4.87e-01 75.3% 71.8%
3kyiA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.70 58.0 4.98e-01 88.9% 61.7%
6t0bc02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.70 57.0 4.30e-01 87.7% 57.6%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.69 52.0 5.35e-01 79.0% 88.0%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.69 57.0 4.90e-01 88.9% 70.4%
3ckcA01 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.69 55.0 4.05e-01 87.7% 63.2%
4k0dA00 1.20.120.1730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 56.0 4.69e-01 90.1% 74.8%
1kqfC00 1.20.950.20 Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C 0.68 47.0 3.40e-01 71.6% 54.6%
1j5wA02 1.20.58.180 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Class II aaRS and biotin synthetases; domain 2 0.67 52.0 5.30e-01 81.5% 85.7%
2qywA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.67 53.0 5.08e-01 86.4% 93.7%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 50.0 4.65e-01 80.2% 66.7%
3qc1A01 1.25.40.540 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › TAP42-like family 0.66 54.0 4.42e-01 88.9% 64.9%
5o5jT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.65 49.0 4.89e-01 86.4% 78.8%
4u7iA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.65 49.0 4.69e-01 80.2% 84.9%
2l6hA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.65 52.0 4.30e-01 90.1% 68.8%
3a11B01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.65 48.0 4.21e-01 80.2% 52.0%
1q0gA00 1.20.120.400 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nickel-containing superoxide dismutase 0.63 51.0 4.59e-01 90.1% 81.2%
2uubT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.63 51.0 4.80e-01 87.7% 71.7%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.63 51.0 4.38e-01 88.9% 76.3%
3u8vA00 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.63 52.0 5.23e-01 90.1% 90.4%
3f1xA01 1.10.3130.10 Mainly Alpha › Orthogonal Bundle › serine acetyltransferase, domain 1 › serine acetyltransferase, domain 1 0.62 49.0 4.11e-01 88.9% 58.4%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.61 47.0 4.68e-01 85.2% 86.2%
5j1hA01 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 49.0 3.93e-01 92.6% 79.1%
5e75A00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.61 53.0 3.31e-01 100.0% 66.2%
6jpaE00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.61 47.0 3.71e-01 82.7% 52.1%
1y6xA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.61 46.0 4.56e-01 82.7% 75.9%
3k8pC02 1.10.357.150 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.60 52.0 4.05e-01 100.0% 64.2%
4u72A01 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 51.0 3.76e-01 96.3% 62.2%
3f4mA00 1.20.1440.160 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like 0.59 47.0 3.95e-01 91.4% 55.8%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.59 47.0 4.40e-01 87.7% 90.2%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.59 40.0 3.23e-01 70.4% 71.1%
3eabE00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.58 45.0 4.47e-01 85.2% 90.7%
1t98A02 1.20.58.590 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chromosome partition protein MukF, middle domain 0.58 47.0 3.87e-01 92.6% 77.3%
1t5oA01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.58 49.0 4.07e-01 92.6% 58.9%
3i2wA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.58 41.0 2.86e-01 74.1% 76.7%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.58 46.0 4.66e-01 87.7% 93.7%
3r2qA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.57 45.0 4.04e-01 84.0% 74.3%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.57 50.0 3.23e-01 100.0% 29.2%
3k8pC01 1.20.58.1440 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 44.0 4.04e-01 84.0% 74.3%
1z9hA03 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 41.0 3.47e-01 82.7% 78.1%
4g10A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 44.0 3.77e-01 90.1% 87.5%
1c17M00 1.20.120.220 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ATP synthase, F0 complex, subunit A 0.54 44.0 3.72e-01 91.4% 77.5%
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.53 40.0 3.92e-01 84.0% 84.8%
3owaA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.52 44.0 3.82e-01 100.0% 71.0%
4agsB04 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 41.0 3.64e-01 91.4% 92.5%
4l8eA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.52 40.0 3.75e-01 88.9% 78.2%
1q8dA00 1.10.220.110 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › GDNF binding domain 0.52 40.0 3.74e-01 82.7% 76.0%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3594098 601.3.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.72 52.0 3.69e-01 74.1% 60.0%
3837970 5051.1.1.0 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like 0.70 49.0 3.07e-01 71.6% 88.6%
4457636 604.12.1.77 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › PMEI 0.70 54.0 5.13e-01 81.5% 86.3%
3301847 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.70 53.0 4.92e-01 80.2% 82.0%
3847053 192.15.1.0 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.69 47.0 4.91e-01 70.4% 100.0%
3579534 192.29.1.144 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › SK_channel 0.69 57.0 4.37e-01 90.1% 67.0%
3972145 5069.1.1.29 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › DUF2214 0.69 56.0 4.63e-01 88.9% 85.5%
3786136 603.1.1.3 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › V-SNARE 0.68 52.0 4.65e-01 82.7% 76.5%
4957968 109.4.1.198 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_12 0.67 54.0 4.52e-01 87.7% 57.1%
3699731 109.4.1.1375 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_SYVN1_N 0.66 56.0 3.89e-01 91.4% 51.8%
3611706 601.3.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain 0.66 57.0 4.84e-01 95.1% 65.4%
5012392 3352.1.1.0 ↗ alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain 0.65 56.0 3.77e-01 92.6% 69.0%
150150 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.65 50.0 4.76e-01 84.0% 69.1%
3413717 603.1.1.17 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › SNARE 0.65 52.0 3.73e-01 88.9% 73.1%
3576710 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.64 49.0 4.91e-01 84.0% 90.6%
4201754 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.64 49.0 4.69e-01 87.7% 71.6%
4088690 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.64 49.0 4.94e-01 85.2% 82.5%
3185456 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 53.0 3.56e-01 95.1% 37.0%
4290271 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.63 49.0 4.79e-01 90.1% 77.8%
4270503 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.63 47.0 4.65e-01 86.4% 77.6%
3703922 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 46.0 3.63e-01 95.1% 35.6%
4321884 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.62 50.0 4.84e-01 91.4% 78.5%
3490481 509.1.1.0 ↗ alpha bundles › PAH2 domain › PAH2 domain › PAH2 domain 0.62 46.0 4.23e-01 79.0% 62.9%
4524825 604.9.1.1 ↗ alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p 0.62 48.0 4.60e-01 86.4% 77.9%
3576355 109.4.1.643 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › COG2_C 0.61 51.0 3.10e-01 95.1% 19.3%
3884763 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 51.0 4.30e-01 95.1% 86.2%
3461370 604.3.1.0 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.61 46.0 4.58e-01 82.7% 88.2%
3583102 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.61 47.0 4.79e-01 85.2% 90.0%
3474317 601.3.1.4 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine-containing phosphotransfer domain, HPT domain › Histidine-containing phosphotransfer domain, HPT domain › PTPLA 0.61 44.0 3.36e-01 79.0% 66.7%
3547270 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.61 42.0 2.68e-01 72.8% 18.8%
3227671 5001.1.1.60 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srx 0.60 47.0 3.23e-01 85.2% 76.3%
3526105 604.3.1.18 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › PF27519 0.60 45.0 4.41e-01 80.2% 82.2%
3545594 109.4.1.256 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Insc_C 0.60 49.0 4.45e-01 90.1% 91.8%
3994713 109.4.1.643 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › COG2_C 0.59 51.0 3.07e-01 97.5% 32.3%
4992024 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.58 45.0 3.92e-01 81.5% 75.8%
5062245 3745.1.1.1 ↗ alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.58 51.0 3.39e-01 98.8% 67.4%
3713780 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.57 45.0 3.94e-01 87.7% 70.4%
3714029 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.57 45.0 3.47e-01 87.7% 46.3%
3617282 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.54 43.0 3.72e-01 92.6% 72.9%
3444192 601.18.1.6 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 › Got1 0.53 43.0 3.62e-01 88.9% 95.0%
4024607 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 46.0 3.23e-01 100.0% 52.4%
3738484 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.52 40.0 2.80e-01 87.7% 23.4%
4164772 4177.1.1.0 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.51 35.0 2.40e-01 71.6% 74.1%